APO88279.1 protein (Marivivens sp. JLT3646) - STRING interaction network

Nodes:

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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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query proteins and first shell of interactors

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second shell of interactors

Node Content

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proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

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Cooccurrence

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[Homology]

Score

APO88279.1

RNA polymerase-binding protein DksA; Derived by automated computational analysis using gene prediction method: Protein Homology. (140 aa)

Predicted Functional Partners:

APO86527.1

0.856

APO85725.1

0.834

APO87351.1

0.814

APO85767.1

0.811

APO88216.1

0.800

APO85766.1

0.765

APO86714.1

0.751

APO85605.1

0.722

APO86526.1

0.706

APO85889.1

0.655

Your Current Organism:

Marivivens sp. JLT3646

NCBI taxonomy Id: 1920883
Other names: M. sp. JLT3646, Marivivens sp. CGMCC 1.15778

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
APO85605.1	APO88279.1	BSK21_00285	BSK21_05360	Cobalamin biosynthesis protein CobW; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase-binding protein DksA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.722
APO85725.1	APO85766.1	BSK21_00945	BSK21_01155	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.996
APO85725.1	APO85767.1	BSK21_00945	BSK21_01160	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.991
APO85725.1	APO85889.1	BSK21_00945	BSK21_01845	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transcription elongation factor GreA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.909
APO85725.1	APO87351.1	BSK21_00945	BSK21_10045	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase sigma factor RpoD; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.969
APO85725.1	APO88216.1	BSK21_00945	BSK21_01330	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit alpha; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.998
APO85725.1	APO88279.1	BSK21_00945	BSK21_05360	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase-binding protein DksA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.834
APO85766.1	APO85725.1	BSK21_01155	BSK21_00945	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.996
APO85766.1	APO85767.1	BSK21_01155	BSK21_01160	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APO85766.1	APO85889.1	BSK21_01155	BSK21_01845	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transcription elongation factor GreA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.961
APO85766.1	APO87351.1	BSK21_01155	BSK21_10045	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase sigma factor RpoD; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.985
APO85766.1	APO88216.1	BSK21_01155	BSK21_01330	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit alpha; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APO85766.1	APO88279.1	BSK21_01155	BSK21_05360	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase-binding protein DksA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.765
APO85767.1	APO85725.1	BSK21_01160	BSK21_00945	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.991
APO85767.1	APO85766.1	BSK21_01160	BSK21_01155	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APO85767.1	APO85889.1	BSK21_01160	BSK21_01845	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transcription elongation factor GreA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.980
APO85767.1	APO87351.1	BSK21_01160	BSK21_10045	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase sigma factor RpoD; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.972
APO85767.1	APO88216.1	BSK21_01160	BSK21_01330	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit alpha; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APO85767.1	APO88279.1	BSK21_01160	BSK21_05360	DNA-directed RNA polymerase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase-binding protein DksA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.811
APO85889.1	APO85725.1	BSK21_01845	BSK21_00945	Transcription elongation factor GreA; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit omega; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.909

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Network Stats

number of nodes:

11

number of edges:

48

average node degree:

8.73

avg. local clustering coefficient:

0.958

expected number of edges:

12

PPI enrichment p-value:

1.24e-14

your network has significantly more interactions
than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
disable highlight explain columns

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003700

DNA-binding transcription factor activity

11 of 178

1.49

3.08

4.99e-14

GO:0003677

DNA binding

11 of 423

1.11

1.57

1.84e-10

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005737

Cytoplasm

11 of 1740

0.5

0.42

0.00053

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:8614

GntR, C-terminal

10 of 29

2.24

7.55

5.97e-19

CL:8612

GntR, C-terminal, and Protein of unknown function DUF112, transmembrane

11 of 55

2.0

6.41

3.69e-19

CL:8616

GntR, C-terminal

6 of 24

2.1

3.94

2.11e-09

CL:8644

GntR, C-terminal

3 of 10

2.18

1.76

0.00041

CL:8617

GntR, C-terminal

3 of 14

2.03

1.58

0.00080

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0032993

protein-DNA complex

9 of 94

1.68

3.58

3.70e-12

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0805

Transcription regulation

11 of 205

1.43

2.82

5.96e-14

KW-0238

DNA-binding

11 of 260

1.33

2.38

2.54e-13

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF00392

Bacterial regulatory proteins, gntR family

4 of 5

2.6

3.24

7.88e-07

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR011711

GntR, C-terminal

11 of 37

2.17

7.73

1.16e-20

IPR008920

Transcription regulator FadR/GntR, C-terminal

11 of 37

2.17

7.73

1.16e-20

IPR000524

Transcription regulator HTH, GntR

11 of 41

2.13

7.48

1.16e-20

IPR036390

Winged helix DNA-binding domain superfamily

11 of 163

1.53

3.31

1.03e-14

IPR036388

Winged helix-like DNA-binding domain superfamily

11 of 214

1.41

2.72

1.51e-13

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00895

This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding ...

11 of 37

2.17

8.04

8.09e-22

SM00345

Helix_turn_helix gluconate operon transcriptional repressor

7 of 36

1.99

4.38

2.16e-11

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